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Optogenetic Tools in the Molecular Spotlight

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Book Series: Frontiers Research Topics ISSN: 16648714 ISBN: 9782889198993 Year: Pages: 179 DOI: 10.3389/978-2-88919-899-3 Language: English
Publisher: Frontiers Media SA
Subject: Science (General)
Added to DOAB on : 2016-01-19 14:05:46
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The rise of optogenetics as a standard technique to non-invasively probe and monitor biological function created an immense interest in the molecular function of photosensory proteins. These photoreceptors are usually protein/pigment complexes that translate light into biological information and have become essential tools in cell biology and neurobiology as their function is genetically encoded and can be conveniently delivered into a given cell. Like for fluorescent proteins that quickly became invaluable as genetically encodable reporters in microscopy and imaging, variants of photosensory proteins with customized sensitivity and functionality are nowadays in high demand. In this ebook we feature reviews and original research on molecular approaches from synthetic biology and molecular spectroscopy to computational molecular modelling that all aspire to elucidate the molecular prerequisites for the photosensory function of the given proteins. The principle property of changing activity of biological function simply by application of light is not only very attractive for cell biology, it also offers unique opportunities for molecular studies as excitation can be controlled with high time precision. Especially in spectroscopy the usually fully reversible photoactivation of photosensory proteins allows researchers to to perform time resolved studies with up to femtosecond resolution. In addition, functional variants can be investigated and quickly screened in common biochemical experiments. The insights that are obtained by the here presented various yet complementary methods will ultimately allow us write the script for a molecular movie from excitation of the protein by a photon to activation of its biological function. Such deep understanding does not only provide unique insights into the dynamics of protein function, it will also ultimately enable us to rationally design novel optogenetic tools to be used in cell biology and therapy.

Engineering Synthetic Metabolons: From Metabolic Modelling to Rational Design of Biosynthetic Devices

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Book Series: Frontiers Research Topics ISSN: 16648714 ISBN: 9782889199211 Year: Pages: 130 DOI: 10.3389/978-2-88919-921-1 Language: English
Publisher: Frontiers Media SA
Subject: General and Civil Engineering --- Biotechnology
Added to DOAB on : 2016-01-19 14:05:46
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The discipline of Synthetic Biology has recently emerged at the interface of biology and engineering. The definition of Synthetic Biology has been dynamic over time ever since, which exemplifies that the field is rapidly moving and comprises a broad range of research areas. In the frame of this Research Topic, we focus on Synthetic Biology approaches that aim at rearranging biological parts/ entities in order to generate novel biochemical functions with inherent metabolic activity. This Research Topic encompasses Pathway Engineering in living systems as well as the in vitro assembly of biomolecules into nano- and microscale bioreactors. Both, the engineering of metabolic pathways in vivo, as well as the conceptualization of bioreactors in vitro, require rational design of assembled synthetic pathways and depend on careful selection of individual biological functions and their optimization. Mathematical modelling has proven to be a powerful tool in predicting metabolic flux in living and artificial systems, although modelling approaches have to cope with a limitation in experimentally verified, reliable input variables. This Research Topic puts special emphasis on the vital role of modelling approaches for Synthetic Biology, i.e. the predictive power of mathematical simulations for (i) the manipulation of existing pathways and (ii) the establishment of novel pathways in vivo as well as (iii) the translation of model predictions into the design of synthetic assemblies.

Enzymes and Their Biotechnological Applications

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ISBN: 9783038421481 9783038421474 Year: Pages: 468 DOI: 10.3390/books978-3-03842-147-4 Language: English
Publisher: MDPI - Multidisciplinary Digital Publishing Institute
Added to DOAB on : 2016-05-12 12:11:22
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Thermophiles and Thermozymes

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ISBN: 9783038978169 9783038978176 Year: Pages: 198 DOI: 10.3390/books978-3-03897-817-6 Language: English
Publisher: MDPI - Multidisciplinary Digital Publishing Institute
Subject: Science (General)
Added to DOAB on : 2019-04-25 16:37:17
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Interest in the study of life in hot environments, both with respect to the inhabiting microorganisms and the enzymes they produce, is currently very high. The biological mechanisms responsible for the resistance to high temperatures are not yet fully understood, whereas thermostability is a highly required feature for industrial applications. In this e-book, the invited authors provide diverse evidence contributing to the understanding of such mechanisms and the unlocking of the biotechnological potential of thermophiles and thermozymes.

Enzyme-Mediated Stereoselective Synthesis

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ISBN: 9783039219360 9783039219377 Year: Pages: 116 DOI: 10.3390/books978-3-03921-937-7 Language: English
Publisher: MDPI - Multidisciplinary Digital Publishing Institute
Subject: Science (General) --- Chemistry (General) --- Inorganic Chemistry
Added to DOAB on : 2020-01-07 09:08:26
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This book is a collection of studies focused on the exploitation of enzyme stereoselectivity for the synthesis of relevant chemicals, such as innovative materials, chiral building blocks, natural products, and flavor and fragrance compounds. Different catalytic approaches are reported. The first study describes a resolution-based process for the stereoselective synthesis of the enantiomeric forms of the flavor compound linaloyl oxide, whereas other enantiomeric enriched aroma compounds were obtained through a novel microbial approach based on solid-state fermentation. Two relevant works exploit the potential of the biocatalyzed reduction reactions. The first of these contributions describes the enantioselective synthesis of ?-nitroalcohols by enzyme-mediated reduction of ?-nitroketones, whereas a second contribution reports the preparation of chiral 1,4-diaryl-1,4-diols through ADH-catalyzed bioreduction of the corresponding diketones. Concerning enantioenriched alcohol derivatives, natural hydroxy fatty acids are prepared by means of the biocatalytic hydration reaction of natural fatty acids using the probiotic bacterium Lactobacillus rhamnosus as a whole-cell biocatalyst. Further studies describe the use of modified pullulan polysaccharide for lipase immobilization and the recent advances in synthetic applications of ?-transaminases for the production of chiral amines.

Synthetic DNA and RNA Programming

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ISBN: 9783039217342 9783039217359 Year: Pages: 188 DOI: 10.3390/books978-3-03921-735-9 Language: English
Publisher: MDPI - Multidisciplinary Digital Publishing Institute
Subject: Science (General) --- Biology
Added to DOAB on : 2019-12-09 11:49:16
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Dear Colleagues, Synthetic biology is a broad and emerging discipline that capitalizes on recent advances in molecular biology, genetics, protein and RNA engineering and omics technologies. These technologies have transformed our ability to reveal the biology of the cell and the molecular basis of disease.

Keywords

fluorescent reporter --- live cell imaging --- microRNA quantification --- optogenetics --- small molecule drug screening --- Escherichia coli --- recombinant protein production --- gene overexpression --- growth effect --- ASKA collection --- codon bias --- branched-chain amino acids --- gene ontology --- genetic code expansion --- protein kinase B --- phosphoinositide dependent kinase 1 --- phosphoseryl-tRNA synthetase --- tRNASep --- alanyl-tRNA synthetase --- class II aminoacyl-tRNA synthetase --- expanded genetic code --- lysine acetylation --- posttranslational modification --- genetic code expansion --- transfer RNA --- synthetic biology --- non-canonical amino acids --- selenocysteine --- genetic code expansion --- release factor 1 --- amber stop codon suppression --- M. jannaschii orthogonal pair --- fluorescence-based screen --- cyclic peptides --- biopharmaceuticals --- mRNA display --- yeast two hybrid --- tRNASer --- mistranslation --- anticodon --- functional conservation --- alternative amino acid and nucleotide repertoires --- alternative core cellular chemistries --- biocontainment --- genetic firewall --- genetic isolation --- orthogonal central dogma of molecular biology --- synthetic life --- xenobiology --- genome engineering --- synthetic biology --- yeasts --- Metschnikowia --- genetic tools --- DNA delivery --- CUG-Ser --- reverse polymerization --- tRNA editing --- tRNA repair --- protein engineering --- synthetic biology --- tRNA --- misacylation --- indirect tRNA aminoacylation --- AspRS --- GluRS-like --- genetic code expansion --- genome synthesis --- genome editing --- microRNA --- protein modification --- RNA metabolism --- tRNA --- synthetic biology --- unnatural amino acids --- unnatural nucleotides

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